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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ), 'gf_id' => 'HOM05D001047', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001047' ), 'data_identifier' => 'HOM05D001047', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001047', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p18010' => 'bna', 'A02p19630' => 'bna', 'A06p13340' => 'bna', 'A06p15280' => 'bna', 'A07p29140' => 'bna', 'A07p38630' => 'bna', 'A07p40590' => 'bna', 'A08p29960' => 'bna', 'A08p30920' => 'bna', 'A09p60410' => 'bna', 'A10p19160' => 'bna', 'Aa31LG1G13990' => 'aar', 'Aa31LG4G13350' => 'aar', 'Aa31LG4G2780' => 'aar', 'Aa31LG4G5160' => 'aar', 'Aa31LG7G2300' => 'aar', 'Aa31LG7G3900' => 'aar', 'Actinidia21802' => 'ach', 'Actinidia29942' => 'ach', 'Actinidia30242' => 'ach', 'Actinidia32203' => 'ach', 'Actinidia39007' => 'ach', 'Ah.08g217050' => 'amhyb', 'Ah.09g229090' => 'amhyb', 'Ah.14g084780' => 'amhyb', 'Ah.15g095170' => 'amhyb', 'AL1G29650' => 'aly', 'AL1G31760' => 'aly', 'AL2G32140' => 'aly', 'AL2G34840' => 'aly', 'AL5G21390' => 'aly', 'AL6G32450' => 'aly', 'Aqoxy7G01011' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0AWF5M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.25PL5E' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.76C240' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BEZ7GQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BH211Y' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DQCW8K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EFG4M9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I4L3EJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NLIW19' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.TPQ86D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W1F2QM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6RF7Y' => 'arhy', 'AT1G17380' => 'ath', 'AT1G19180' => 'ath', 'AT1G72450' => 'ath', 'AT1G74950' => 'ath', 'AT3G43440' => 'ath', 'AT5G20900' => 'ath', 'ATR0006G029' => 'atr', 'ATR0006G052' => 'atr', 'Atru.chr1.4071' => 'acertr', 'Atru.chr7.1738' => 'acertr', 'Atru.chr7.1739' => 'acertr', 'Atru.chr7.1808' => 'acertr', 'AUR62001446' => 'cqu', 'AUR62009919' => 'cqu', 'AUR62025291' => 'cqu', 'AUR62028298' => 'cqu', 'BcaB02g06975' => 'bca', 'BcaB03g12929' => 'bca', 'BcaB03g13002' => 'bca', 'BcaB03g14461' => 'bca', 'BcaB03g14462' => 'bca', 'BcaB03g14996' => 'bca', 'BcaB05g22803' => 'bca', 'BcaB05g24756' => 'bca', 'BcaB05g24879' => 'bca', 'BcaB07g31928' => 'bca', 'BcaB08g37320' => 'bca', 'BcaC03g13812' => 'bca', 'BcaC03g15382' => 'bca', 'BcaC03g15534' => 'bca', 'BcaC04g19482' => 'bca', 'BcaC05g27775' => 'bca', 'BcaC07g38853' => 'bca', 'BcaC07g41271' => 'bca', 'BcaC07g41416' => 'bca', 'BcaC07g41419' => 'bca', 'BcaC07g41422' => 'bca', 'BcaC08g46696' => 'bca', 'BcaC08g46928' => 'bca', 'BcaC08g46961' => 'bca', 'BcaNung06476' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01280' => 'bna', 'BolC2t07081H' => 'bol', 'BolC2t09042H' => 'bol', 'BolC2t09254H' => 'bol', 'BolC5t30286H' => 'bol', 'BolC5t30457H' => 'bol', 'BolC6t38419H' => 'bol', 'BolC6t39724H' => 'bol', 'BolC6t39933H' => 'bol', 'BolC8t49421H' => 'bol', 'BolC8t49545H' => 'bol', 'BolC8t51937H' => 'bol', 'BolC9t58389H' => 'bol', 'BraA02t05602Z' => 'bra', 'BraA02t06848Z' => 'bra', 'BraA02t06999Z' => 'bra', 'BraA06t24487Z' => 'bra', 'BraA06t24642Z' => 'bra', 'BraA07t30553Z' => 'bra', 'BraA07t31421Z' => 'bra', 'BraA07t31603Z' => 'bra', 'BraA08t34931Z' => 'bra', 'BraA08t35024Z' => 'bra', 'BraA09t38515Z' => 'bra', 'BraA09t41412Z' => 'bra', 'BraA10t43991Z' => 'bra', 'C02p10500' => 'bna', 'C02p29950' => 'bna', 'C02p32160' => 'bna', 'C05p15810' => 'bna', 'C05p17520' => 'bna', 'C05p37720' => 'bna', 'C06p33010' => 'bna', 'C06p46810' => 'bna', 'C06p48960' => 'bna', 'C08p17910' => 'bna', 'C08p19270' => 'bna', 'C08p43890' => 'bna', 'C09p55290' => 'bna', 'CAN.G1168.1' => 'can', 'CAN.G1243.4' => 'can', 'CAN.G1661.25' => 'can', 'CAN.G2125.1' => 'can', 'CAN.G862.42' => 'can', 'CANSAT56G0578' => 'cansat', 'CANSAT56G2651' => 'cansat', 'CANSAT56G2853' => 'cansat', 'CANSAT56G3467' => 'cansat', 'CANSAT56G4180' => 'cansat', 'CARHR017980' => 'chi', 'CARHR019780' => 'chi', 'CARHR065390' => 'chi', 'CARHR068270' => 'chi', 'CARHR191950' => 'chi', 'Carub.0001s1715' => 'cru', 'Carub.0001s1880' => 'cru', 'Carub.0002s1930' => 'cru', 'Carub.0002s2174' => 'cru', 'Carub.0006s1919' => 'cru', 'Ca_02220_v3' => 'car', 'Ca_02314_v3' => 'car', 'Ca_21352_v3' => 'car', 'Ca_23407_v3' => 'car', 'Ca_24614_v3' => 'car', 'Cc02_g23080' => 'ccan', 'Cc04_g01080' => 'ccan', 'Cc06_g12500' => 'ccan', 'CDE04G1925' => 'cde', 'CDE04G3301' => 'cde', 'CDE05G0290' => 'cde', 'CDE05G0578' => 'cde', 'CDE05G1786' => 'cde', 'CDE06G0301' => 'cde', 'CDE06G1940' => 'cde', 'CDE06G2286' => 'cde', 'CDE11G0879' => 'cde', 'Cfa002963' => 'cfa', 'Cfa003512' => 'cfa', 'Ciclev10008653m.g' => 'ccl', 'Ciclev10009025m.g' => 'ccl', 'Ciclev10026376m.g' => 'ccl', 'Ciclev10026527m.g' => 'ccl', 'CiPaw.01G216300' => 'cil', 'CiPaw.02G133900' => 'cil', 'CiPaw.03G150000' => 'cil', 'CiPaw.03G203400' => 'cil', 'CiPaw.04G141300' => 'cil', 'ClCG03G014890' => 'cla', 'ClCG07G014490' => 'cla', 'ClCG09G001120' => 'cla', 'COL.COLO4_17732' => 'col', 'COL.COLO4_18064' => 'col', 'COL.COLO4_21176' => 'col', 'COL.COLO4_21177' => 'col', 'COL.COLO4_29064' => 'col', 'COL.COLO4_30790' => 'col', 'Cpa.g.sc113.51' => 'cpa', 'Cpa.g.sc1667.1' => 'cpa', 'Cpa.g.sc25.146' => 'cpa', 'Cpa.g.sc82.24' => 'cpa', 'CsaV3_1G041270' => 'csa', 'CsaV3_3G030830' => 'csa', 'CsaV3_7G034270' => 'csa', 'CSS0010510' => 'camsi', 'CSS0011019' => 'camsi', 'CSS0031905' => 'camsi', 'DCAR_007653' => 'dca', 'DCAR_011935' => 'dca', 'DCAR_016107' => 'dca', 'DCAR_022663' => 'dca', 'DCAR_022665' => 'dca', 'DCAR_028473' => 'dca', 'Dinv07479' => 'din', 'Dinv20411' => 'din', 'Dinv25535' => 'din', 'Dinv42416' => 'din', 'Duzib150G0095' => 'dzi', 'Duzib150G1532' => 'dzi', 'Duzib160G0581' => 'dzi', 'Duzib168G0163' => 'dzi', 'Duzib168G2328' => 'dzi', 'Duzib187G0215' => 'dzi', 'Duzib192G0491' => 'dzi', 'Duzib235G0888' => 'dzi', 'ECA232G1983' => 'eca', 'ECA234G1201' => 'eca', 'ECA236G0223' => 'eca', 'ECA247G0040' => 'eca', 'EL10Ac7g16441' => 'bvu', 'EL10Ac8g19004' => 'bvu', 'Eucgr.C00753' => 'egr', 'Eucgr.C00785' => 'egr', 'Eucgr.C03301' => 'egr', 'FAN02G1879' => 'fan', 'FAN04G1998' => 'fan', 'FAN08G1269' => 'fan', 'FAN09G2579' => 'fan', 'FAN13G0404' => 'fan', 'FAN14G3719' => 'fan', 'FAN18G2883' => 'fan', 'FAN18G4507' => 'fan', 'FAN19G1532' => 'fan', 'FAN19G2610' => 'fan', 'FAN23G0009' => 'fan', 'FAN23G0978' => 'fan', 'FAN23G1948' => 'fan', 'FAN26G0938' => 'fan', 'FAN26G1269' => 'fan', 'FAN26G1307' => 'fan', 'FAN26G3094' => 'fan', 'FAN28G0688' => 'fan', 'FAN28G1146' => 'fan', 'FvH4_1g09070' => 'fve', 'FvH4_1g09690' => 'fve', 'FvH4_5g11290' => 'fve', 'FvH4_6g35140' => 'fve', 'Glyma.01G204400' => 'gma', 'Glyma.04G013800' => 'gma', 'Glyma.06G013700' => 'gma', 'Glyma.07G041400' => 'gma', 'Glyma.08G264701' => 'gma', 'Glyma.09G071600' => 'gma', 'Glyma.09G077500' => 'gma', 'Glyma.11G038600' => 'gma', 'Glyma.13G112000' => 'gma', 'Glyma.13G116100' => 'gma', 'Glyma.15G179600' => 'gma', 'Glyma.15G184900' => 'gma', 'Glyma.16G010000' => 'gma', 'Glyma.17G043700' => 'gma', 'Glyma.17G047700' => 'gma', 'Gohir.A05G034800' => 'ghi', 'Gohir.A05G037500' => 'ghi', 'Gohir.A05G139000' => 'ghi', 'Gohir.A06G078400' => 'ghi', 'Gohir.A07G018400' => 'ghi', 'Gohir.A08G246300' => 'ghi', 'Gohir.A10G056000' => 'ghi', 'Gohir.D05G036200' => 'ghi', 'Gohir.D05G039000' => 'ghi', 'Gohir.D05G141200' => 'ghi', 'Gohir.D06G077500' => 'ghi', 'Gohir.D07G018200' => 'ghi', 'Gohir.D08G267400' => 'ghi', 'Gohir.D10G057900' => 'ghi', 'Gorai.001G018800' => 'gra', 'Gorai.004G285100' => 'gra', 'Gorai.009G036800' => 'gra', 'Gorai.009G039500' => 'gra', 'Gorai.009G145400' => 'gra', 'Gorai.010G090600' => 'gra', 'Gorai.011G062000' => 'gra', 'GSVIVG01015042001' => 'vvi', 'GSVIVG01016721001' => 'vvi', 'GSVIVG01023256001' => 'vvi', 'HanXRQChr04g0094401' => 'han', 'HanXRQChr04g0125901' => 'han', 'HanXRQChr06g0168671' => 'han', 'HanXRQChr09g0277101' => 'han', 'HanXRQChr10g0311841' => 'han', 'HanXRQChr11g0324701' => 'han', 'HanXRQChr11g0351101' => 'han', 'HanXRQChr12g0354451' => 'han', 'HanXRQChr12g0360201' => 'han', 'HanXRQChr12g0360211' => 'han', 'HanXRQChr12g0360231' => 'han', 'HanXRQChr12g0360241' => 'han', 'HanXRQChr15g0497141' => 'han', 'Haze_16063' => 'cav', 'Haze_26039' => 'cav', 'Hma1.2p1_0090F.1_g046090' => 'hma', 'Hma1.2p1_0090F.1_g046100' => 'hma', 'Hma1.2p1_0229F.1_g096740' => 'hma', 'Hma1.2p1_0542F.1_g175000' => 'hma', 'Hma1.2p1_0884F.1_g232490' => 'hma', 'HPP92_002378' => 'vpl', 'HPP92_002393' => 'vpl', 'HPP92_004173' => 'vpl', 'HPP92_005874' => 'vpl', 'HPP92_009416' => 'vpl', 'HPP92_010992' => 'vpl', 'HPP92_011064' => 'vpl', 'HPP92_026310' => 'vpl', 'HPP92_027605' => 'vpl', 'Hund05721' => 'sun', 'Hund08846' => 'sun', 'Hund18677' => 'sun', 'Hund26086' => 'sun', 'Lalb_Chr04g0253721' => 'lal', 'Lalb_Chr05g0214211' => 'lal', 'Lalb_Chr07g0181301' => 'lal', 'Lalb_Chr08g0232721' => 'lal', 'Lalb_Chr08g0232941' => 'lal', 'Lalb_Chr09g0324131' => 'lal', 'Lalb_Chr10g0101351' => 'lal', 'Lalb_Chr11g0074131' => 'lal', 'Lalb_Chr12g0200271' => 'lal', 'Lalb_Chr12g0200421' => 'lal', 'Lalb_Chr13g0299081' => 'lal', 'Lalb_Chr13g0299341' => 'lal', 'Lalb_Chr17g0343481' => 'lal', 'Lalb_Chr18g0044941' => 'lal', 'Lalb_Chr23g0276321' => 'lal', 'Lj2g0003101' => 'lja', 'Lj3g0014931' => 'lja', 'Lj4A916T17' => 'lonja', 'Lj4g0027094' => 'lja', 'Lj4g0027867' => 'lja', 'Lj6g0004228' => 'lja', 'Lj6g0013412' => 'lja', 'Lj7A689T75' => 'lonja', 'Lsat_1_v5_gn_1_37841' => 'lsa', 'Lsat_1_v5_gn_4_91521' => 'lsa', 'Lsat_1_v5_gn_5_137041' => 'lsa', 'Lsat_1_v5_gn_5_139561' => 'lsa', 'Lsat_1_v5_gn_8_85820' => 'lsa', 'Manes.03G042500' => 'mes', 'Manes.03G055200' => 'mes', 'Manes.04G147900' => 'mes', 'Manes.07G023500' => 'mes', 'Manes.11G016700' => 'mes', 'Manes.16G088300' => 'mes', 'Manes.16G093500' => 'mes', 'MBI13_g00692_MAGBIO' => 'mbi', 'MBI13_g05964_MAGBIO' => 'mbi', 'MBI13_g09073_MAGBIO' => 'mbi', 'MBI19_g05284_MAGBIO' => 'mbi', 'MD02G1096100' => 'mdo', 'MD02G1105900' => 'mdo', 'MD09G1178600' => 'mdo', 'MD15G1220400' => 'mdo', 'MD15G1225800' => 'mdo', 'MD15G1434400' => 'mdo', 'MD17G1164400' => 'mdo', 'Medtr2g042900' => 'mtr', 'Medtr2g044910' => 'mtr', 'Medtr4g124360' => 'mtr', 'Medtr4g124950' => 'mtr', 'Medtr4g124960' => 'mtr', 'Medtr5g013515' => 'mtr', 'Medtr5g013520' => 'mtr', 'Medtr5g013530' => 'mtr', 'Medtr8g021380' => 'mtr', 'MELO3C015538.2' => 'cme', 'MELO3C022678.2' => 'cme', 'MELO3C024336.2' => 'cme', 'Migut.D00926' => 'egut', 'Migut.I01104' => 'egut', 'Migut.L01582' => 'egut', 'MSTRG.10497' => 'ama', 'MSTRG.10933' => 'ama', 'MSTRG.19445' => 'ama', 'MSTRG.22536' => 'ama', 'MSTRG.9531' => 'ama', 'Nitab4.5_0000073g0270' => 'nta', 'Nitab4.5_0000189g0060' => 'nta', 'Nitab4.5_0000343g0360' => 'nta', 'Nitab4.5_0000787g0240' => 'nta', 'Nitab4.5_0004234g0080' => 'nta', 'Nitab4.5_0004322g0050' => 'nta', 'Nitab4.5_0006232g0010' => 'nta', 'Nitab4.5_0007295g0020' => 'nta', 'Nitab4.5_0021182g0010' => 'nta', 'Nn3g18389' => 'nnu', 'Nn5g27879' => 'nnu', 'Nn6g35678' => 'nnu', 'Nn7g37410' => 'nnu', 'Nn8g38582' => 'nnu', 'Oeu000285.1' => 'oeu', 'Oeu005159.1' => 'oeu', 'Oeu005583.1' => 'oeu', 'Oeu006737.1' => 'oeu', 'Oeu007421.1' => 'oeu', 'Oeu025295.1' => 'oeu', 'Oeu049606.1' => 'oeu', 'Oeu060636.1' => 'oeu', 'Os03g0180800' => 'osa', 'Os03g0180900' => 'osa', 'Os03g0181100' => 'osa', 'Os03g0402800' => 'osa', 'Os04g0653000' => 'osa', 'Os07g0615200' => 'osa', 'Os09g0439200' => 'osa', 'Os10g0391400' => 'osa', 'Os10g0391801' => 'osa', 'Os10g0392400' => 'osa', 'Peaxi162Scf00011g01124' => 'pax', 'Peaxi162Scf00038g01961' => 'pax', 'Peaxi162Scf00533g00059' => 'pax', 'Peaxi162Scf00928g00130' => 'pax', 'PGR044G1306' => 'pgr', 'PGR142G0155' => 'pgr', 'PGR142G0888' => 'pgr', 'PGSC0003DMG400002930' => 'stu', 'PGSC0003DMG400004367' => 'stu', 'PGSC0003DMG400022888' => 'stu', 'PGSC0003DMG400029237' => 'stu', 'Phvul.002G002000' => 'pvu', 'Phvul.003G125700' => 'pvu', 'Phvul.003G129200' => 'pvu', 'Phvul.009G221800' => 'pvu', 'Phvul.009G225300' => 'pvu', 'Phvul.010G127400' => 'pvu', 'Potri.001G166200' => 'ptr', 'Potri.003G068900' => 'ptr', 'Potri.006G139400' => 'ptr', 'Potri.006G217200' => 'ptr', 'Potri.018G047100' => 'ptr', 'Prupe.3G037800' => 'ppe', 'Prupe.7G189200' => 'ppe', 'Prupe.7G194800' => 'ppe', 'Psat0s766g0040' => 'psa', 'Psat1g016520' => 'psa', 'Psat1g136080' => 'psa', 'Psat2g175680' => 'psa', 'Psat4g018840' => 'psa', 'Psat4g020200' => 'psa', 'PSO104G0045' => 'pso', 'PSO386G0059' => 'pso', 'PSO386G0225' => 'pso', 'PSO386G0232' => 'pso', 'PSO421G0328' => 'pso', 'PSO724G0961' => 'pso', 'PSO724G1100' => 'pso', 'PSO724G1109' => 'pso', 'QL05p003789' => 'qlo', 'QL05p003803' => 'qlo', 'QL11p001290' => 'qlo', 'RcHm_v2.0_Chr2g0095481' => 'rch', 'RcHm_v2.0_Chr2g0096551' => 'rch', 'RcHm_v2.0_Chr2g0146371' => 'rch', 'Rhsim03G0226700' => 'rsi', 'Rhsim05G0004700' => 'rsi', 'Rhsim08G0241000' => 'rsi', 'Sabra01G0127100' => 'sbr', 'Sabra03G0040400' => 'sbr', 'Sabra06G0167500' => 'sbr', 'SalBow5G2121' => 'sbo', 'SalBow6G1905' => 'sbo', 'SalBow6G5797' => 'sbo', 'SalBow6G5825' => 'sbo', 'Sc08g0009060' => 'sci', 'Sc12g0010780' => 'sci', 'Sc18g0002760' => 'sci', 'Sed0000801' => 'sed', 'Sed0004686' => 'sed', 'Sed0011504' => 'sed', 'Sed0012608' => 'sed', 'Sed0022086' => 'sed', 'Sed0027370' => 'sed', 'SEGI_02697' => 'sgi', 'SEGI_14779' => 'sgi', 'SEGI_19168' => 'sgi', 'SEGI_30870' => 'sgi', 'SEGI_41219' => 'sgi', 'SEGI_41449' => 'sgi', 'SGA_v2.0_scaffold21G09523' => 'sas', 'SGA_v2.0_scaffold296G47560' => 'sas', 'SGA_v2.0_scaffold297G47585' => 'sas', 'SGA_v2.0_scaffold31G12677' => 'sas', 'SGA_v2.0_scaffold4G02077' => 'sas', 'SGA_v2.0_scaffold71G23887' => 'sas', 'SMO351G0489' => 'smo', 'Solyc01g103595.1' => 'sly', 'Solyc03g122190.3' => 'sly', 'Solyc07g042170.3' => 'sly', 'Solyc12g009220.2' => 'sly', 'Solyc12g049400.2' => 'sly', 'Sopen01g045960' => 'spe', 'Sopen03g040960' => 'spe', 'Sopen07g021770' => 'spe', 'Sopen12g004170' => 'spe', 'Sopen12g023880' => 'spe', 'Sp1g15530' => 'spa', 'Sp1g17080' => 'spa', 'Sp5g27530' => 'spa', 'Sp5g30090' => 'spa', 'Sp6g23620' => 'spa', 'Sp6g23790' => 'spa', 'SpUn0033_0020' => 'spa', 'TAR468G0005' => 'tar', 'TAR624G0161' => 'tar', 'TAR691G0001' => 'tar', 'THA.LOC104799600' => 'tha', 'THA.LOC104806552' => 'tha', 'THA.LOC104808068' => 'tha', 'THA.LOC104812262' => 'tha', 'THA.LOC104813963' => 'tha', 'THA.LOC104815065' => 'tha', 'Thecc.02G019400' => 'tca', 'Thecc.06G123900' => 'tca', 'Thecc.09G067200' => 'tca', 'Thecc.09G073600' => 'tca', 'Thhalv10008415m.g' => 'esa', 'Thhalv10008419m.g' => 'esa', 'Thhalv10013955m.g' => 'esa', 'Thhalv10018984m.g' => 'esa', 'Thhalv10019039m.g' => 'esa', 'TPR.G12621' => 'tpr', 'TPR.G12661' => 'tpr', 'TPR.G15435' => 'tpr', 'TPR.G16751' => 'tpr', 'TPR.G18015' => 'tpr', 'TPR.G31421' => 'tpr', 'TPR.G40124' => 'tpr', 'TPR.G8176' => 'tpr', 'TWI32G0022' => 'twi', 'TWI34G1575' => 'twi', 'TWI59G0473' => 'twi', 'TWI63G0579' => 'twi', 'TWI63G1362' => 'twi', 'unitig_22.g5974' => 'ugi', 'unitig_26.g9185' => 'ugi', 'unitig_578.g16404' => 'ugi', 'unitig_699.g19258' => 'ugi', 'unitig_8.g3539' => 'ugi', 'unitig_8.g4682' => 'ugi', 'unitig_85.g27248' => 'ugi', 'unitig_899.g15183' => 'ugi', 'vmacro06350' => 'vma', 'vmacro15051' => 'vma', 'vmacro17112' => 'vma', 'VMungo0331G1097' => 'vmu', 'VMungo1215G0026' => 'vmu', 'VMungo1215G0723' => 'vmu', 'VMungo1215G2562' => 'vmu', 'VMungo1309G1373' => 'vmu', 'VMungo1347G0001' => 'vmu', 'Zm00001eb005980' => 'zma', 'Zm00001eb005990' => 'zma', 'Zm00001eb006000' => 'zma', 'Zm00001eb009620' => 'zma', 'Zm00001eb019470' => 'zma', 'Zm00001eb048740' => 'zma', 'Zm00001eb048770' => 'zma', 'Zm00001eb048780' => 'zma', 'Zm00001eb056840' => 'zma', 'Zm00001eb068050' => 'zma', 'Zm00001eb100130' => 'zma', 'Zm00001eb109190' => 'zma', 'Zm00001eb164160' => 'zma', 'Zm00001eb168150' => 'zma', 'Zm00001eb220310' => 'zma', 'Zm00001eb223580' => 'zma', 'Zm00001eb223590' => 'zma', 'Zm00001eb223620' => 'zma', 'Zm00001eb314010' => 'zma', 'Zm00001eb325530' => 'zma', 'Zm00001eb327450' => 'zma', 'Zm00001eb384630' => 'zma', 'Zm00001eb401750' => 'zma', 'Zm00001eb414910' => 'zma', 'Zm00001eb432370' => 'zma' ) $gf_id = 'HOM05D001047' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001047' ) $data_identifier = 'HOM05D001047' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 1, 'arhy' => (int) 12, 'ath' => (int) 6, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 4, 'bca' => (int) 25, 'bol' => (int) 12, 'bra' => (int) 13, 'can' => (int) 5, 'cansat' => (int) 5, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 3, 'col' => (int) 6, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 3, 'dca' => (int) 6, 'din' => (int) 4, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 2, 'egr' => (int) 3, 'fan' => (int) 19, 'fve' => (int) 4, 'gma' => (int) 15, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 13, 'cav' => (int) 2, 'hma' => (int) 5, 'vpl' => (int) 9, 'sun' => (int) 4, 'lal' => (int) 15, 'lja' => (int) 6, 'lonja' => (int) 2, 'lsa' => (int) 5, 'mes' => (int) 7, 'mbi' => (int) 4, 'mdo' => (int) 7, 'mtr' => (int) 9, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 5, 'nta' => (int) 9, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 10, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 8, 'qlo' => (int) 3, 'rch' => (int) 3, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 4, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 6, 'sas' => (int) 6, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 7, 'tar' => (int) 3, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 8, 'twi' => (int) 5, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 6, 'zma' => (int) 25 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb432370' $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